Artem Cherkasov

Publication Activity (10 Years)

Years Active: 1998-2024
Publications (10 Years): 18

Top Topics

Prostate Cancer

Gradient Boosting

Top Venues

J. Chem. Inf. Model.

Nat. Mach. Intell.

Publications

Hazem Mslati, Francesco Gentile, Mohit Pandey, Fuqiang Ban, Artem Cherkasov
PROTACable Is an Integrative Computational Pipeline of 3-D Modeling and Deep Learning To Automate the De Novo Design of PROTACs. J. Chem. Inf. Model. 64 (8) (2024)
Olivia Garland, Anh-Tien Ton, Shoeib Moradi, Jason R. Smith, Suzana Kovacic, Kurtis Ng, Mohit Pandey, Fuqiang Ban, Jaeyong Lee, Marija Vuckovic, Liam J. Worrall, Robert N. Young, Ralph Pantophlet, Natalie C. J. Strynadka, Artem Cherkasov
Large-Scale Virtual Screening for the Discovery of SARS-CoV-2 Papain-like Protease (PLpro) Non-covalent Inhibitors. J. Chem. Inf. Model. 63 (7) (2023)
Tony Shen, Mohit Pandey, Jason R. Smith, Artem Cherkasov, Martin Ester
TacoGFN: Target Conditioned GFlowNet for Structure-Based Drug Design. CoRR (2023)
Olivia Garland, Mariia Radaeva, Mohit Pandey, Artem Cherkasov, Nada Lallous
PurificationDB: database of purification conditions for proteins. Database J. Biol. Databases Curation 2023 (2023)
Jean Charle Yaacoub, James Gleave, Francesco Gentile, Abraham Stern, Artem Cherkasov
DD-GUI: a graphical user interface for deep learning-accelerated virtual screening of large chemical libraries (Deep Docking). Bioinform. 38 (4) (2022)
Mohit Pandey, Michael Fernández, Francesco Gentile, Olexandr Isayev, Alexander Tropsha, Abraham C. Stern, Artem Cherkasov
The transformational role of GPU computing and deep learning in drug discovery. Nat. Mach. Intell. 4 (3) (2022)
Daniel Robert Korn, Vera Pervitsky, Tesia M. Bobrowski, Vinicius M. Alves, Charles Schmitt, Chris Bizon, Nancy Baker, Rada Chirkova, Artem Cherkasov, Eugene N. Muratov, Alexander Tropsha
COVID-19 Knowledge Extractor (COKE): A Curated Repository of Drug-Target Associations Extracted from the CORD-19 Corpus of Scientific Publications on COVID-19. J. Chem. Inf. Model. 61 (12) (2021)
Hazem Mslati, Francesco Gentile, Carl Perez, Artem Cherkasov
Comprehensive Consensus Analysis of SARS-CoV-2 Drug Repurposing Campaigns. J. Chem. Inf. Model. 61 (8) (2021)
Godwin Woo, Michael Fernández, Michael Hsing, Nathan A. Lack, Ayse Derya Cavga, Artem Cherkasov
DeepCOP: deep learning-based approach to predict gene regulating effects of small molecules. Bioinform. 36 (3) (2020)
Mariia Radaeva, Xuesen Dong, Artem Cherkasov
The Use of Methods of Computer-Aided Drug Discovery in the Development of Topoisomerase II Inhibitors: Applications and Future Directions. J. Chem. Inf. Model. 60 (8) (2020)
Michael Fernández, Fuqiang Ban, Godwin Woo, Olexandr Isayev, Carl Perez, Valery Fokin, Alexander Tropsha, Artem Cherkasov
Quantitative Structure-Price Relationship (QS$R) Modeling and the Development of Economically Feasible Drug Discovery Projects. J. Chem. Inf. Model. 59 (4) (2019)
Vibudh Agrawal, Francesco Gentile, Michael Hsing, Fuqiang Ban, Artem Cherkasov
Progressive Docking - Deep Learning Based Approach for Accelerated Virtual Screening. ICANN (Workshop) (2019)
Zaccary Alperstein, Artem Cherkasov, Jason Tyler Rolfe
All SMILES VAE. CoRR (2019)
Qingyuan Feng, Evgenia V. Dueva, Artem Cherkasov, Martin Ester
PADME: A Deep Learning-based Framework for Drug-Target Interaction Prediction. CoRR (2018)
Michael Fernández, Fuqiang Ban, Godwin Woo, Michael Hsing, Takeshi Yamazaki, Eric Leblanc, Paul S. Rennie, William J. Welch, Artem Cherkasov
Toxic Colors: The Use of Deep Learning for Predicting Toxicity of Compounds Merely from Their Graphic Images. J. Chem. Inf. Model. 58 (8) (2018)
Tong He, Marten Heidemeyer, Fuqiang Ban, Artem Cherkasov, Martin Ester
SimBoost: a read-across approach for predicting drug-target binding affinities using gradient boosting machines. J. Cheminformatics 9 (1) (2017)
Fuqiang Ban, Kush Dalal, Huifang Li, Eric Leblanc, Paul S. Rennie, Artem Cherkasov
Best Practices of Computer-Aided Drug Discovery: Lessons Learned from the Development of a Preclinical Candidate for Prostate Cancer with a New Mechanism of Action. J. Chem. Inf. Model. 57 (5) (2017)
Naman Paul, Lavinia A. Carabet, Nada Lallous, Takeshi Yamazaki, Martin E. Gleave, Paul S. Rennie, Artem Cherkasov
Cheminformatics Modeling of Adverse Drug Responses by Clinically Relevant Mutants of Human Androgen Receptor. J. Chem. Inf. Model. 56 (12) (2016)
Huifang Li, Xin Ren, Eric Leblanc, Kate Frewin, Paul S. Rennie, Artem Cherkasov
Identification of Novel Androgen Receptor Antagonists Using Structure- and Ligand-Based Methods. J. Chem. Inf. Model. 53 (1) (2013)
Artem Cherkasov
Targeting protein-protein interactions using methods of cheminformatics. J. Cheminformatics 4 (S-1) (2012)
Iurii Sushko, Anil Kumar Pandey, Sergii Novotarskyi, Robert Körner, Matthias Rupp, Wolfram Teetz, Stefan Brandmaier, Ahmed Abdelaziz, Volodymyr V. Prokopenko, Vsevolod Yu. Tanchuk, Roberto Todeschini, Alexandre Varnek, Gilles Marcou, Peter Ertl, Vladimir Potemkin, Maria Grishina, Johann Gasteiger, Igor I. Baskin, Vladimir A. Palyulin, Eugene V. Radchenko, William J. Welsh, Vladyslav V. Kholodovych, Dmitriy Chekmarev, Artem Cherkasov, João Aires-de-Sousa, Qing-You Zhang, Andreas Bender, Florian Nigsch, Luc Patiny, Antony J. Williams, Valery Tkachenko, Igor V. Tetko
Online chemical modeling environment (OCHEM): web platform for data storage, model development and publishing of chemical information. J. Cheminformatics 3 (S-1) (2011)
Iurii Sushko, Sergii Novotarskyi, Robert Körner, Anil Kumar Pandey, Matthias Rupp, Wolfram Teetz, Stefan Brandmaier, Ahmed Abdelaziz, Volodymyr V. Prokopenko, Vsevolod Yu. Tanchuk, Roberto Todeschini, Alexandre Varnek, Gilles Marcou, Peter Ertl, Vladimir Potemkin, Maria Grishina, Johann Gasteiger, Christof H. Schwab, Igor I. Baskin, Vladimir A. Palyulin, Eugene V. Radchenko, William J. Welsh, Vladyslav V. Kholodovych, Dmitriy Chekmarev, Artem Cherkasov, João Aires-de-Sousa, Qing-You Zhang, Andreas Bender, Florian Nigsch, Luc Patiny, Antony J. Williams, Valery Tkachenko, Igor V. Tetko
Online chemical modeling environment (OCHEM): web platform for data storage, model development and publishing of chemical information. J. Comput. Aided Mol. Des. 25 (6) (2011)
Alexander Schönhuth, Raheleh Salari, Fereydoun Hormozdiari, Artem Cherkasov, Süleyman Cenk Sahinalp
Towards Improved Assessment of Functional Similarity in Large-Scale Screens: A Study on Indel Length. J. Comput. Biol. 17 (1) (2010)
Iurii Sushko, Sergii Novotarskyi, Robert Körner, Anil Kumar Pandey, Artem Cherkasov, Jiazhong Li, Paola Gramatica, Katja Hansen, Timon Schroeter, Klaus-Robert Müller, Lili Xi, Huanxiang Liu, Xiaojun Yao, Tomas Öberg, Farhad Hormozdiari, Phuong Dao, Süleyman Cenk Sahinalp, Roberto Todeschini, Pavel G. Polishchuk, Anatoly G. Artemenko, Victor Kuzmin, Todd Martin, Douglas M. Young, Denis Fourches, Eugene N. Muratov, Alexander Tropsha, Igor I. Baskin, Dragos Horvath, Gilles Marcou, Christophe Muller, Alexandre Varnek, Volodymyr V. Prokopenko, Igor V. Tetko
Applicability Domains for Classification Problems: Benchmarking of Distance to Models for Ames Mutagenicity Set. J. Chem. Inf. Model. 50 (12) (2010)
Michael Hsing, Kendall G. Byler, Artem Cherkasov
Prediction of highly-connected 'hub'-proteins in protein interaction networks using QSAR. J. Cheminformatics 2 (S-1) (2010)
Fereydoun Hormozdiari, Raheleh Salari, Michael Hsing, Alexander Schönhuth, Simon K. Chan, Süleyman Cenk Sahinalp, Artem Cherkasov
The Effect of Insertions and Deletions on Wirings in Protein-Protein Interaction Networks: A Large-Scale Study. J. Comput. Biol. 16 (2) (2009)
Osvaldo Andrade Santos-Filho, Artem Cherkasov
Using Molecular Docking, 3D-QSAR, and Cluster Analysis for Screening Structurally Diverse Data Sets of Pharmacological Interest. J. Chem. Inf. Model. 48 (10) (2008)
Michael Hsing, Artem Cherkasov
Indel PDB: A database of structural insertions and deletions derived from sequence alignments of closely related proteins. BMC Bioinform. 9 (2008)
Michael Hsing, Kendall G. Byler, Artem Cherkasov
The use of Gene Ontology terms for predicting highly-connected 'hub' nodes in protein-protein interaction networks. BMC Syst. Biol. 2 (2008)
Hao Zhu, Alexander Tropsha, Denis Fourches, Alexandre Varnek, Ester Papa, Paola Gramatica, Tomas Öberg, Phuong Dao, Artem Cherkasov, Igor V. Tetko
Combinatorial QSAR Modeling of Chemical Toxicants Tested against Tetrahymena pyriformis. J. Chem. Inf. Model. 48 (4) (2008)
Raheleh Salari, Alexander Schönhuth, Fereydoun Hormozdiari, Artem Cherkasov, Süleyman Cenk Sahinalp
The Relation between Indel Length and Functional Divergence: A Formal Study. WABI (2008)
Emre Karakoç, Süleyman Cenk Sahinalp, Artem Cherkasov
Comparative QSAR Analysis of Bacterial-, Fungalplant- and Human Metabolites. Pacific Symposium on Biocomputing (2007)
Christopher D. Fjell, Robert E. W. Hancock, Artem Cherkasov
AMPer: a database and an automated discovery tool for antimicrobial peptides. Bioinform. 23 (9) (2007)
Emre Karakoç, Artem Cherkasov, Süleyman Cenk Sahinalp
Novel approaches for small biomolecule classification and structural similarity search. SIGKDD Explor. 9 (1) (2007)
Simon K. Chan, Michael Hsing, Fereydoun Hormozdiari, Artem Cherkasov
Relationship between insertion/deletion (indel) frequency of proteins and essentiality. BMC Bioinform. 8 (2007)
Artem Cherkasov
Can 'Bacterial-Metabolite-Likeness' Model Improve Odds of 'in Silico' Antibiotic Discovery?. J. Chem. Inf. Model. 46 (3) (2006)
Emre Karakoç, Süleyman Cenk Sahinalp, Artem Cherkasov
Comparative QSAR- and Fragments Distribution Analysis of Drugs, Druglikes, Metabolic Substances, and Antimicrobial Compounds. J. Chem. Inf. Model. 46 (5) (2006)
Emre Karakoç, Artem Cherkasov, Süleyman Cenk Sahinalp
Distance based algorithms for small biomolecule classification and structural similarity search. ISMB (Supplement of Bioinformatics) (2006)
Yvonne Y. Li, Steven J. M. Jones, Artem Cherkasov
Selective Targeting of Indel-inferred Differences in Spatial Structures of Homologous Proteins. J. Bioinform. Comput. Biol. 4 (2) (2006)
Artem Cherkasov, Zheng Shi, Yvonne Y. Li, Steven J. M. Jones, Magid Fallahi, Geoffrey L. Hammond
'Inductive' Charges on Atoms in Proteins: Comparative Docking with the Extended Steroid Benchmark Set and Discovery of a Novel SHBG Ligand. J. Chem. Inf. Model. 45 (6) (2005)
Artem Cherkasov, Steven J. M. Jones
An approach to large scale identification of non-obvious structural similarities between proteins. BMC Bioinform. 5 (2004)
Artem Cherkasov, Shannan J. Ho Sui, Robert C. Brunham, Steven J. M. Jones
Structural characterization of genomes by large scale sequence-structure threading: application of reliability analysis in structural genomics. BMC Bioinform. 5 (2004)
Artem Cherkasov, Steven J. M. Jones
Structural characterization of genomes by large scale sequence-structure threading. BMC Bioinform. 5 (2004)
Michael Hsing, Joel L. Bellenson, Conor Shankey, Artem Cherkasov
Modeling of cell signaling pathways in macrophages by semantic networks. BMC Bioinform. 5 (2004)
Artem Cherkasov
Inductive Electronegativity Scale. Iterative Calculation of Inductive Partial Charges. J. Chem. Inf. Comput. Sci. 43 (6) (2003)
Artem Cherkasov, Mats Jonsson
A New Method for Estimation of Homolytic C-H Bond Dissociation Enthalpies. J. Chem. Inf. Comput. Sci. 40 (5) (2000)
Artem Cherkasov, Mats Jonsson
Substituent Effects on Thermochemical Properties of C-, N-, O-, and S-Centered Radicals. Physical Interpretation of Substituent Effects. J. Chem. Inf. Comput. Sci. 39 (6) (1999)
Artem Cherkasov, Mats Jonsson
Substituent Effects on Thermochemical Properties of Free Radicals. New Substituent Scales for C-Centered Radicals. J. Chem. Inf. Comput. Sci. 38 (6) (1998)